Figure 5
From: PExFInS: An Integrative Post-GWAS Explorer for Functional Indels and SNPs
Implementation of PExFInS with SAS statistical language.
Seven SAS macros are included in PExFInS. These macros can run along or together. User only needs to provide SNP list (dbSNP rs IDs) or the chromosome range (human genome build hg19) to calculate the pairwise linkage disequilibrium (LD) values (r2 and D’) and retrieve all high LD variants. These high LD variants can be further annotated. User may also query expression Quantitative Trait Loci (eQTL) databases or create LD plots. cis-eQTL and trans-eQTL analysis with 423 lymphoblastoid cell lines (LCLs) from six global populations are also implemented in PExFInS.
